Re: [AMBER] Amber 11 bugfix/Cuda update

From: Ismail, Mohd F. <farid.ou.edu>
Date: Fri, 19 Aug 2011 17:23:16 +0000

Filip,

Try /exact/path/to/updatescript /exact/path/to/bugfixfile

Even after I copy everything to $AMBERHOME, I still got the erorr, and solved it by doing ./apply_bugfix.x $AMBERHOME/bugfix.1to17.tar.bz2

HTH
Farid Ismail
________________________________________
From: filip fratev [filipfratev.yahoo.com]
Sent: Friday, August 19, 2011 12:20 PM
To: AMBER Mailing List
Subject: Re: [AMBER] Amber 11 bugfix/Cuda update

I have the same problem with the new patch:
tar (child): bugfix.1to17.tar.bz2: NO such file....
tar (child): Error is not recoverable: exiting now
tar: Child returned status 2
tar: Error is not recoverable: exiting now
Error extracting amber_bugfix_1_to_16.txt from archive!
Corrupt archive. Download patch bugfix.1to17.tar.bz2 again and re-apply

Regards,
Filip






----- Original Message -----
From: Jason Swails <jason.swails.gmail.com>
To: AMBER Mailing List <amber.ambermd.org>
Cc:
Sent: Friday, August 19, 2011 6:04 PM
Subject: Re: [AMBER] Amber 11 bugfix

You need to supply the path of the bugfix.1to17.tar.bz2 for apply_bugfix.x

--
Jason M. Swails
Quantum Theory Project,
University of Florida
Ph.D. Candidate
352-392-4032
On Aug 19, 2011, at 10:54 AM, "Jennifer L. Muzyka" <jennifer.muzyka.centre.edu> wrote:
> When I type echo $AMBERHOME, I get /Users/jennifer.muzyka/opt/amber11.  I have downloaded the script and the patch tarball both to the same amber11 directory.
> Jennifer
>
>
> On Aug 19, 2011, at 10:51 AM, David A Case wrote:
>
>> On Fri, Aug 19, 2011, Jennifer L. Muzyka wrote:
>>
>>> I'm trying to install the Amber 11 bugfixes before installing
>>> Amber 11.  When I try to apply the bugfix patch as described
>>> at ambermd.org/bugfixes11.html (using ./apply_bugfix.x
>>> bugfix.1to17.tar.bz2), I get the following error:
>>> tar:  Error opening archive:  Failed to open 'bugfix.1to17.tar.bz2':  No
>>> such file or directory
>>
>> I'm guessing this arises because your AMBERHOME environment variable is not
>> set correctly.  It should point to the amber11 tree.  Can you see if that is
>> the problem?
>>
>> ...dac
>>
>>
>> _______________________________________________
>> AMBER mailing list
>> AMBER.ambermd.org
>> http://lists.ambermd.org/mailman/listinfo/amber
>
> Jennifer L. Muzyka
> Professor of Chemistry
> Centre College
> 600 West Walnut Street
> Danville, KY  40422
>
> jennifer.muzyka.centre.edu
> http://web.centre.edu/muzyka/
>
>
>
>
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> AMBER mailing list
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Received on Fri Aug 19 2011 - 10:30:06 PDT